BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 013828
         (436 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1F62|A Chain A, Wstf-Phd
          Length = 51

 Score = 35.8 bits (81), Expect = 0.048,   Method: Composition-based stats.
 Identities = 20/50 (40%), Positives = 28/50 (56%), Gaps = 4/50 (8%)

Query: 5  CQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFE-DDVLWYCEDCEP 53
          C+ C  KG  + LI C++C   A H++CL   PA +E  D  W C  C+P
Sbjct: 3  CKVCRKKGEDDKLILCDECN-KAFHLFCLR--PALYEVPDGEWQCPACQP 49


>pdb|3ZVZ|B Chain B, Phd Finger Of Human Uhrf1
          Length = 57

 Score = 35.4 bits (80), Expect = 0.060,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 5  VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 53


>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
           Homeodomain Of Uhrf1 With Histone H3k9me3
 pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
           Homeodomain Of Uhrf1 With Histone H3k9me3
 pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
           Homeodomain Of Uhrf1 With Histone H3k9me3
 pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
           Homeodomain Of Uhrf1 With Histone H3k9me3
          Length = 241

 Score = 35.0 bits (79), Expect = 0.082,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2   VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
           V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 190 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 238


>pdb|3T6R|A Chain A, Structure Of Uhrf1 In Complex With Unmodified H3
          N-Terminal Tail
 pdb|3T6R|B Chain B, Structure Of Uhrf1 In Complex With Unmodified H3
          N-Terminal Tail
          Length = 72

 Score = 34.7 bits (78), Expect = 0.096,   Method: Composition-based stats.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 23 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 71


>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
 pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
 pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
 pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
          Length = 226

 Score = 34.7 bits (78), Expect = 0.098,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2   VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
           V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 174 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 222


>pdb|3SHB|A Chain A, Crystal Structure Of Phd Domain Of Uhrf1
          Length = 77

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 26 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 74


>pdb|3ZVY|A Chain A, Phd Finger Of Human Uhrf1 In Complex With Unmodified
          Histone H3 N-Terminal Tail
 pdb|3ZVY|B Chain B, Phd Finger Of Human Uhrf1 In Complex With Unmodified
          Histone H3 N-Terminal Tail
          Length = 72

 Score = 30.8 bits (68), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 20 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 68


>pdb|3SOU|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
          1-9 Peptide
 pdb|3SOU|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone H3
          1-9 Peptide
 pdb|3SOW|A Chain A, Structure Of Uhrf1 Phd Finger In Complex With Histone
          H3k4me3 1-9 Peptide
 pdb|3SOW|B Chain B, Structure Of Uhrf1 Phd Finger In Complex With Histone
          H3k4me3 1-9 Peptide
 pdb|3SOX|A Chain A, Structure Of Uhrf1 Phd Finger In The Free Form
 pdb|3SOX|B Chain B, Structure Of Uhrf1 Phd Finger In The Free Form
 pdb|3ASL|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
          Length = 70

 Score = 30.4 bits (67), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 18 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 66


>pdb|2LGG|A Chain A, Structure Of Phd Domain Of Uhrf1 In Complex With H3
          Peptide
 pdb|2LGK|A Chain A, Nmr Structure Of Uhrf1 Phd Domains In A Complex With
          Histone H3 Peptide
 pdb|2LGL|A Chain A, Nmr Structure Of The Uhrf1 Phd Domain
          Length = 69

 Score = 30.4 bits (67), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 1/50 (2%)

Query: 2  VTVCQQCGDKGFYEALIGCEKCQTTAVHIYCLPVLPASFEDDVLWYCEDC 51
          V  C  CG +   +  + C++C   A HIYCL    +S   +  WYC +C
Sbjct: 18 VCACHLCGGRQDPDKQLMCDECDM-AFHIYCLDPPLSSVPSEDEWYCPEC 66


>pdb|1WL4|A Chain A, Human Cytosolic Acetoacetyl-Coa Thiolase Complexed With
           Coa
 pdb|1WL5|A Chain A, Human Cytosolic Acetoacetyl-Coa Thiolase
          Length = 397

 Score = 28.9 bits (63), Expect = 6.3,   Method: Compositional matrix adjust.
 Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 8/86 (9%)

Query: 236 KVVVIEVHSMGNDKKGYQFRRQRELVKNSSDTGTKSLKNSLVTTSHSFSIPKHSSNVSEK 295
           KV V+  +   N +K   F ++   V  S+  G   +K            P+H SN+   
Sbjct: 180 KVAVLSQNRTENAQKAGHFDKEIVPVLVSTRKGLIEVKTD--------EFPRHGSNIEAM 231

Query: 296 SIFEVQFKEDAVKDLSPIRWSGLNGG 321
           S  +  F  D    ++P   SG+N G
Sbjct: 232 SKLKPYFLTDGTGTVTPANASGINDG 257


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.312    0.128    0.377 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,315,860
Number of Sequences: 62578
Number of extensions: 463221
Number of successful extensions: 780
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 770
Number of HSP's gapped (non-prelim): 16
length of query: 436
length of database: 14,973,337
effective HSP length: 102
effective length of query: 334
effective length of database: 8,590,381
effective search space: 2869187254
effective search space used: 2869187254
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)